1 Input options

Value
echo FALSE
inputData ReportOutput/ReadDataOutput.RData
filterMean 30
filterPrevalence_Proportion 0
filterPrevalence_Expression 0
filterIQR 0
output GeneFilterOutput.RData

2 Filtered data

A multitude of filter criteria are applied to the gene expression data. Here we summarise the filter results of individual filters and the final result.

RemovedMean RemovedIQR RemovedPrevalence Removed
6155 0 0 6155

Removed (mean): 6155 (35.52%)

Removed (IQR): 0 (0.00%)

Removed (Prevalence): 0 (0.00%)

Filtered total: 6155 (35.52%)

Remaining genes: 11173

2.1 Filter plots

You may want to change some options based on the current filtering results to tweak the filter cutoff values. These filter plots may help with setting the right filter options.

2.1.1 Mean filter

Filter by normalized mean expression.

Require that Mean expression > params$filterMean).

2.1.2 IQR filter

Filter by inter-quartile range. I.e. the difference between the 25th and 75th percentile.

Filter by **IQR > params$filterIQR.

2.1.3 Prevalence filter

Plot coming soon-ish.